Dear gromacs experts, I tried to analysis the Radius of gyration of a polymer. But I found the result of first frame was always very different. Then I installed different vesions of gmx with or without mpi. And I got different results. So I used the first tutorial on http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/lysozyme/index.html as a example. I import the mases from the top file to matlab, and got the positions via vmd. It seems only 5.0.4 vesion without mpi get the correct result. While all the others have the same wrong number. But when I copy the file to another machine, I get another different false result.
So where the problem come from? Thanks, Kangjie Lv 489524...@qq.com ------------------------------------ My result:(protein rg of frame 0) vesion 4.6.7 with mpi: 0 1.36815 1.16912 1.34953 0.74539 10 1.38857 1.17871 1.38217 0.745979 withoutmpi: 0 1.36815 1.16912 1.34953 0.74539 10 1.38857 1.17871 1.38217 0.745979 vesion 5.0.4 with mpi: 0 1.36815 1.16912 1.34953 0.74539 10 1.38857 1.17871 1.38217 0.745979 withoutmpi: 0 1.40022 1.19943 1.02439 1.19718 10 1.41136 1.20202 1.04328 1.2044 from matlab: 0 14.0022 10 14.1135 another machine(has 64 cores): vesion 5.0.4 with mpi (the first frame always false using different -b flags) 0 1.4657 1.38007 1.12533 1.06095 10 2.15321 1.45292 1.74791 2.02645 without mpi 0 1.40022 1.19943 1.02439 1.19718 10 1.41136 1.20202 1.04328 1.2044 all files here http://pan.baidu.com/s/1hq9yFsw -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.